PAS2GEF {APAlyzer} | R Documentation |
Build 3'UTR PAS and IPA (IPA and LE) Reference using GTF file.
PAS2GEF(GTFfile)
GTFfile |
GTF file of gene annotation |
The function PAS2GEF()
returns 3 input tables of PAS references:
PASREF$refUTRraw is for 3'UTR PAS,
PASREF$dfIPA and PASREF$dfLE are for IPA references.
Ruijia Wang
## build Reference ranges for 3'UTR PASs in mouse download.file(url='ftp://ftp.ensembl.org/pub/release-99/gtf/mus_musculus/Mus_musculus.GRCm38.99.gtf.gz', destfile='Mus_musculus.GRCm38.99.gtf.gz') GTFfile="Mus_musculus.GRCm38.99.gtf.gz" PASREF=PAS2GEF(GTFfile) refUTRraw=PASREF$refUTRraw dfIPA=PASREF$dfIPA dfLE=PASREF$dfLE